dimer minimization

From: ayk_at_mail.ecc.u-tokyo.ac.jp
Date: Wed Feb 28 2007 - 03:54:40 CST

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Dear all,

I am now learning NAMD2.6 with tutorial.
In the tutorial, minimization of ubq is illustrated and I am checking if I can run another protein in the same way.

http://www.ks.uiuc.edu/Training/Tutorials/namd/namd-tutorial-unix-html/index.html

But, I cannot run minimization of dimer proteins due to error when I run .conf.
The error message is about RATTLE algorithm.

How do I run a dimer minimization with NAMD?

Yusuke Kato

AIST JAPAN

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